Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,708,913 |
G→A |
78.1% |
E54E (GAG→GAA) |
yhfZ → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,708,913 | 0 | G | A | 78.1%
| 113.9
/ 29.9
| 64 | E54E (GAG→GAA) | yhfZ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (7/7); new base A (30/20); total (37/27) |
| Fisher's exact test for biased strand distribution p-value = 5.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01 |
AGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATA > minE/2708847‑2708975
|
aGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATc > 1:4853117/1‑69 (MQ=255)
aGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATc > 1:4782177/1‑69 (MQ=255)
aGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATc > 1:1432258/1‑69 (MQ=255)
gATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAg > 1:3417358/1‑71 (MQ=255)
tGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCgg < 1:847574/67‑1 (MQ=255)
ggCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGa < 1:1448394/67‑1 (MQ=255)
aatgaatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACg < 1:2943138/71‑1 (MQ=255)
tgaatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGa > 1:3459342/1‑61 (MQ=255)
aatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGAtt > 1:3209483/1‑71 (MQ=255)
aatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGAtt > 1:3036705/1‑71 (MQ=255)
atgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTg < 1:4978589/71‑1 (MQ=255)
tgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTg < 1:1501590/70‑1 (MQ=255)
tgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTg < 1:5660691/70‑1 (MQ=255)
cGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAAc < 1:5201614/70‑1 (MQ=255)
gTTCATCCGTTGGCCTGACGCAGGCCGCTTTGAAAACGCTGGAATCAAGCgg < 1:295796/52‑1 (MQ=255)
cATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGt > 1:1564634/1‑71 (MQ=255)
cATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGa > 1:1278612/1‑54 (MQ=255)
cATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt > 1:4033568/1‑71 (MQ=255)
cATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt > 1:1989860/1‑71 (MQ=255)
aTCCTTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt < 1:3333137/70‑1 (MQ=255)
ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc < 1:1010979/71‑1 (MQ=255)
ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc < 1:5140493/71‑1 (MQ=255)
ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc < 1:544019/71‑1 (MQ=255)
ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGgcg > 1:1410223/1‑70 (MQ=255)
tGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc > 1:2489090/1‑70 (MQ=255)
tGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc > 1:5332886/1‑70 (MQ=255)
ggCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCaa > 1:2724693/1‑71 (MQ=255)
ggCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt > 1:1410442/1‑63 (MQ=255)
ggCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt > 1:1404947/1‑63 (MQ=255)
gCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAAt < 1:3925667/71‑1 (MQ=255)
ccTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATg < 1:5284244/71‑1 (MQ=255)
aCGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGaa > 1:3828186/1‑51 (MQ=255)
aCGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAg > 1:4499871/1‑71 (MQ=255)
cGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:4935379/1‑71 (MQ=255)
cGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:203992/1‑71 (MQ=255)
gCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGtt < 1:1168167/71‑1 (MQ=255)
gCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:1385710/1‑70 (MQ=255)
gCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:3402161/1‑70 (MQ=255)
gCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:2416082/1‑70 (MQ=255)
ccGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTg > 1:1183657/1‑71 (MQ=255)
ccGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTg > 1:5609510/1‑71 (MQ=255)
ccGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTg < 1:3074273/71‑1 (MQ=255)
cgcgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGAt > 1:2138272/1‑39 (MQ=255)
gcgTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGAtt > 1:2002797/1‑39 (MQ=255)
gcgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAg > 1:3847029/1‑62 (MQ=255)
gcgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTgg < 1:4010145/70‑1 (MQ=255)
cgTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTc < 1:2477216/71‑1 (MQ=255)
tGAAAACGCTGGAATCAAGCTGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTgg > 1:5043449/1‑66 (MQ=255)
tGAAAACGCTGGAATCAAGCGGATCGATACGGATTGAACGCCGTGGgcgc < 1:609743/50‑1 (MQ=255)
tGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGaa > 1:637766/1‑38 (MQ=255)
tGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc < 1:560475/50‑1 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt > 1:3028858/1‑58 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTAt > 1:4562422/1‑61 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTc > 1:381545/1‑67 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAg < 1:4815048/70‑1 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAg < 1:3661627/70‑1 (MQ=255)
gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAg < 1:4808684/70‑1 (MQ=255)
aaaaCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAgg < 1:3347439/70‑1 (MQ=255)
aCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAata < 1:1983704/71‑1 (MQ=255)
aCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAata < 1:1965070/71‑1 (MQ=255)
aCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAata < 1:5573913/71‑1 (MQ=255)
cGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAga > 1:1499004/1‑65 (MQ=255)
cGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAga > 1:2567475/1‑65 (MQ=255)
gCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTAt > 1:4489624/1‑55 (MQ=255)
|
AGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATA > minE/2708847‑2708975
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
